BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 007676
(593 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1WGP|A Chain A, Solution Structure Of The Cnmp-Binding Domain From
Arabidopsis Thaliana Cyclic Nucleotide-Regulated Ion
Channel
Length = 137
Score = 97.1 bits (240), Expect = 3e-20, Method: Composition-based stats.
Identities = 52/140 (37%), Positives = 85/140 (60%), Gaps = 12/140 (8%)
Query: 424 LKSVEEFKKLNEAILDALCDCVKMTFYFKHTHISLDGDPIYEMLFLVRGKIWIYSSKERI 483
++ V F+ ++E +LDA+C+ +K + + +++ +GDP+ EMLF++RG++
Sbjct: 8 VRRVPLFENMDERLLDAICERLKPCLFTEKSYLVREGDPVNEMLFIIRGRL--------- 58
Query: 484 NGSANTDYFRDNNNMTKMDHLADGDFWGEELVAWALYNRSLSNIPVSTRTVQTLTDVEGF 543
S TD R + L +GDF G+EL+ WAL +S SN+P STRTV+ LT+VE F
Sbjct: 59 -ESVTTDGGR--SGFYNRSLLKEGDFCGDELLTWALDPKSGSNLPSSTRTVKALTEVEAF 115
Query: 544 VLTAEDLKSVFTEHEISGST 563
L A++LK V ++ SG +
Sbjct: 116 ALIADELKFVASQFRRSGPS 135
>pdb|3UKN|A Chain A, Structure Of The C-LinkerCNBHD OF ZELK CHANNELS IN C 2 2
21 SPACE Group
pdb|3UKN|B Chain B, Structure Of The C-LinkerCNBHD OF ZELK CHANNELS IN C 2 2
21 SPACE Group
pdb|3UKN|C Chain C, Structure Of The C-LinkerCNBHD OF ZELK CHANNELS IN C 2 2
21 SPACE Group
pdb|3UKT|B Chain B, Structure Of The C-LinkerCNBHD OF ZELK CHANNELS IN P1 21 1
SPACE Group
pdb|3UKT|A Chain A, Structure Of The C-LinkerCNBHD OF ZELK CHANNELS IN P1 21 1
SPACE Group
pdb|3UKT|C Chain C, Structure Of The C-LinkerCNBHD OF ZELK CHANNELS IN P1 21 1
SPACE Group
pdb|3UKT|D Chain D, Structure Of The C-LinkerCNBHD OF ZELK CHANNELS IN P1 21 1
SPACE Group
pdb|3UKV|B Chain B, Structure Of The C-LinkerCNBHD OF ZELK CHANNELS IN P 1 21
1 SPACE Group, Crystallized In The Presence Of Camp
pdb|3UKV|A Chain A, Structure Of The C-LinkerCNBHD OF ZELK CHANNELS IN P 1 21
1 SPACE Group, Crystallized In The Presence Of Camp
pdb|3UKV|C Chain C, Structure Of The C-LinkerCNBHD OF ZELK CHANNELS IN P 1 21
1 SPACE Group, Crystallized In The Presence Of Camp
pdb|3UKV|D Chain D, Structure Of The C-LinkerCNBHD OF ZELK CHANNELS IN P 1 21
1 SPACE Group, Crystallized In The Presence Of Camp
Length = 212
Score = 38.5 bits (88), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 26/115 (22%), Positives = 54/115 (46%), Gaps = 1/115 (0%)
Query: 362 VRMQEINEWMPIEKLSQSVQQQLKIYQRYVWRKPNNIDVESTLSSLPKELIRNIKHELCL 421
R +++ +++ + +L +++ Q++ + W N IDV L P EL +I L
Sbjct: 16 TRTKDLKDFIRVHRLPKALAQRMLECFQTTWSVNNGIDVSELLKDFPDELRADIAMHLNK 75
Query: 422 ELLKSVEEFKKLNEAILDALCDCVKMTFYFKHTHISLDGDPIYEMLFLVRGKIWI 476
ELL+ + F+ + L +L +K +F + GD + + F+ G + +
Sbjct: 76 ELLQ-LPLFESASRGCLRSLSLIIKTSFCAPGEFLIRQGDALQAIYFVCSGSMEV 129
>pdb|3SHR|A Chain A, Crystal Structure Of Cgmp-Dependent Protein Kinase Reveals
Novel Site Of Interchain Communication
pdb|3SHR|B Chain B, Crystal Structure Of Cgmp-Dependent Protein Kinase Reveals
Novel Site Of Interchain Communication
Length = 299
Score = 37.7 bits (86), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 30/99 (30%), Positives = 44/99 (44%), Gaps = 12/99 (12%)
Query: 415 IKHELCLELLKSVEEFKKLNEAILDALCDCVKMTFYFKHTHISLDGDPIYEMLFLVRGKI 474
IKH +E LKSV F+ L E IL L D ++ T Y +I G RG
Sbjct: 150 IKHTEYMEFLKSVPTFQSLPEEILSKLADVLEETHYENGEYIIRQG---------ARGDT 200
Query: 475 WIYSSKERINGSANTDYFRDNNNMTKMDHLADGDFWGEE 513
+ SK ++N + N + + L GD++GE+
Sbjct: 201 FFIISKGKVNVTREDS---PNEDPVFLRTLGKGDWFGEK 236
>pdb|3P11|A Chain A, Anti-EgfrHER3 FAB DL11 IN COMPLEX WITH DOMAINS I-Iii Of
The Her3 Extracellular Region
Length = 522
Score = 30.8 bits (68), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 33/172 (19%), Positives = 73/172 (42%), Gaps = 21/172 (12%)
Query: 422 ELLKSVEEFKKLNEAILDALCDCVKMTFYFKHTHISLDGDPIYEMLFLVRGKIWIYSSKE 481
E S F+ ++ + +D +C K+ L+GDP +++ L K+ ++ +
Sbjct: 313 EGTGSGSRFQTVDSSNIDGFVNCTKILGNLDFLITGLNGDPWHKIPALDPEKLNVFRTVR 372
Query: 482 RINGSANTDYFRDN-NNMTKMDHLADGDFWGEELVAWALYNRSLS-----NIPVSTRTVQ 535
I G N + + +N + +L + +LYNR S N+ V++ +
Sbjct: 373 EITGYLNIQSWPPHMHNFSVFSNLT-------TIGGRSLYNRGFSLLIMKNLNVTSLGFR 425
Query: 536 TLTDVEGFVLTAEDLKSVFTEHEIS------GST--KLNLKHSNIQAACVIQ 579
+L ++ + + + H ++ G T +L++KH+ + CV +
Sbjct: 426 SLKEISAGRIYISANRQLCYHHSLNWTKVLRGPTEERLDIKHNRPRRDCVAE 477
>pdb|1A59|A Chain A, Cold-Active Citrate Synthase
Length = 378
Score = 30.8 bits (68), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 30/114 (26%), Positives = 49/114 (42%), Gaps = 25/114 (21%)
Query: 111 RMIVDLVGGNNSRRNISHIRVCEYLSPSL----LVDLLAIFPLPQLVILFIIPQMRGSKI 166
R V ++G N++R S SP + LLA FP V+ + + RG ++
Sbjct: 98 RTAVSVLGANHARAQDS--------SPEANLEKAMSLLATFPS---VVAYDQRRRRGEEL 146
Query: 167 LDAMDLLKYSVFIQFVPRIVRIYPWSVAKLAEATWVIAAFNLLLYMFAGHVFGA 220
++ + L YS F+ W A V+ AFN+ + ++A H F A
Sbjct: 147 IEPREDLDYSA--NFL--------WMTFGEEAAPEVVEAFNVSMILYAEHSFNA 190
>pdb|3UBK|A Chain A, Crystal Structure Of Glutathione Transferase (Target
Efi-501770) From Leptospira Interrogans
pdb|3UBK|B Chain B, Crystal Structure Of Glutathione Transferase (Target
Efi-501770) From Leptospira Interrogans
pdb|3UBL|A Chain A, Crystal Structure Of Glutathione Transferase (Target
Efi-501770) From Leptospira Interrogans With Gsh Bound
pdb|3UBL|B Chain B, Crystal Structure Of Glutathione Transferase (Target
Efi-501770) From Leptospira Interrogans With Gsh Bound
Length = 242
Score = 30.8 bits (68), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 19/74 (25%), Positives = 41/74 (55%), Gaps = 7/74 (9%)
Query: 135 LSPSLLVDLLAIFPLPQLVILFIIPQMRGSKILDAMDLLKY--SVFIQFVPRIVRIYPWS 192
++PS D L I P+ ++ +L +M G I ++ +L++ ++F Q P+++ PW
Sbjct: 34 IAPSQEEDFLKISPMGKIPVL----EMDGKFIFESGAILEFLDTIFPQ-TPKLIPEDPWE 88
Query: 193 VAKLAEATWVIAAF 206
A++ E + +I +
Sbjct: 89 AARVREISTIIETY 102
>pdb|1M6B|A Chain A, Structure Of The Her3 (Erbb3) Extracellular Domain
pdb|1M6B|B Chain B, Structure Of The Her3 (Erbb3) Extracellular Domain
Length = 621
Score = 30.4 bits (67), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 33/173 (19%), Positives = 73/173 (42%), Gaps = 21/173 (12%)
Query: 421 LELLKSVEEFKKLNEAILDALCDCVKMTFYFKHTHISLDGDPIYEMLFLVRGKIWIYSSK 480
E S F+ ++ + +D +C K+ L+GDP +++ L K+ ++ +
Sbjct: 312 CEGTGSGSRFQTVDSSNIDGFVNCTKILGNLDFLITGLNGDPWHKIPALDPEKLNVFRTV 371
Query: 481 ERINGSANTDYFRDN-NNMTKMDHLADGDFWGEELVAWALYNRSLS-----NIPVSTRTV 534
I G N + + +N + +L + +LYNR S N+ V++
Sbjct: 372 REITGYLNIQSWPPHMHNFSVFSNLT-------TIGGRSLYNRGFSLLIMKNLNVTSLGF 424
Query: 535 QTLTDVEGFVLTAEDLKSVFTEHEIS------GST--KLNLKHSNIQAACVIQ 579
++L ++ + + + H ++ G T +L++KH+ + CV +
Sbjct: 425 RSLKEISAGRIYISANRQLCYHHSLNWTKVLRGPTEERLDIKHNRPRRDCVAE 477
>pdb|3U0Z|A Chain A, Tetramerization Dynamics Of The C-Terminus Underlies
Isoform-Specific Camp-Gating In Hcn Channels
pdb|3U0Z|B Chain B, Tetramerization Dynamics Of The C-Terminus Underlies
Isoform-Specific Camp-Gating In Hcn Channels
Length = 210
Score = 28.9 bits (63), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 29/127 (22%), Positives = 57/127 (44%), Gaps = 5/127 (3%)
Query: 358 KEMSVRMQEINEWMPIEKLSQSVQQQLKIYQRYVWRKPNNI-DVESTLSSLPKELIRNIK 416
++ + +++ ++M KL ++Q KI+ Y R I D E+ LS L L I
Sbjct: 12 RQYQEKYKQVEQYMSFHKLPADMRQ--KIHDYYEHRYQGKIFDEENILSELNDPLREEIV 69
Query: 417 HELCLELLKSVEEFKKLNEAILDALCDCVKMTFYFKHTHISLDGDPIYEMLFLVRG--KI 474
+ C +L+ ++ F + + A+ ++ + +I +G +M F+ G +
Sbjct: 70 NFNCRKLVATMPLFANADPNFVTAMLSKLRFEVFQPGDYIIREGAVGKKMYFIQHGVAGV 129
Query: 475 WIYSSKE 481
SSKE
Sbjct: 130 ITKSSKE 136
>pdb|4GKF|A Chain A, Crystal Structure And Characterization Of Cmr5 Protein
From Pyrococcus Furiosus
pdb|4GKF|B Chain B, Crystal Structure And Characterization Of Cmr5 Protein
From Pyrococcus Furiosus
Length = 169
Score = 28.5 bits (62), Expect = 9.9, Method: Composition-based stats.
Identities = 23/64 (35%), Positives = 35/64 (54%), Gaps = 7/64 (10%)
Query: 349 YLESKALKSKEMSVR-MQEINEWMP--IEKLSQSVQQQLKIYQRYV-WRKPN---NIDVE 401
+L +KA S E + + + +NE+ P IEKL + L +Y V W + N NIDV+
Sbjct: 67 FLLAKAETSPEKANQILSRVNEYPPRFIEKLGNDKDEHLLLYLHIVYWLRENVDRNIDVK 126
Query: 402 STLS 405
+ LS
Sbjct: 127 TLLS 130
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.325 0.138 0.432
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,855,202
Number of Sequences: 62578
Number of extensions: 671189
Number of successful extensions: 1661
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 1656
Number of HSP's gapped (non-prelim): 14
length of query: 593
length of database: 14,973,337
effective HSP length: 104
effective length of query: 489
effective length of database: 8,465,225
effective search space: 4139495025
effective search space used: 4139495025
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 54 (25.4 bits)